Showing NP-Card for trans-3-hexenoic acid (NP0303496)

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Record Information
Version2.0
Created at2022-09-10 17:53:03 UTC
Updated at2022-09-10 17:53:03 UTC
NP-MRD IDNP0303496
Secondary Accession NumbersNone
Natural Product Identification
Common Nametrans-3-hexenoic acid
DescriptionTrans-hex-3-enoic acid, also known as (3E)-3-hexenoic acid or 6:1, N-3 trans, belongs to the class of organic compounds known as medium-chain fatty acids. These are fatty acids with an aliphatic tail that contains between 4 and 12 carbon atoms. trans-3-hexenoic acid is found in Vitis vinifera. Trans-hex-3-enoic acid is a very hydrophobic molecule, practically insoluble (in water), and relatively neutral.
Structure
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MOL3D MOLSDFPDBSMILESInChI

MOL for NP0303496 (trans-3-hexenoic acid)

  Mrv1572004251602042D          

 10  9  0  0  0  0            999 V2000
    2.0625    0.7145    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.2375    0.7145    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8250    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4125   -0.7145    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2375   -0.7145    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6500   -1.4289    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6500    0.0000    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.2375   -0.7145    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4125    0.7145    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
  2  1  1  0  0  0  0
  3  2  1  0  0  0  0
  4  3  2  0  0  0  0
  5  4  1  0  0  0  0
  6  5  1  0  0  0  0
  7  6  2  0  0  0  0
  8  6  1  0  0  0  0
  9  3  1  0  0  0  0
 10  4  1  0  0  0  0
M  END
Download

3D MOL for NP0303496 (trans-3-hexenoic acid)

     RDKit          3D

 18 17  0  0  0  0  0  0  0  0999 V2000
   -2.5579    0.5000    0.5407 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9089   -0.0341   -0.6789 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5063   -0.4424   -0.5742 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.2640   -0.3937    0.5019 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6809   -0.8573    0.4049 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6130    0.2668    0.7409 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.3896    0.9179    1.7821 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.7001    0.6084   -0.0552 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3904    1.2292    0.2655 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1143   -0.3020    1.1302 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8665    0.9704    1.2379 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9795    0.7225   -1.5375 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5289   -0.9166   -1.0421 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0228   -0.8235   -1.4877 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1441   -0.0235    1.4449 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.9047   -1.1437   -0.6336 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.9195   -1.6857    1.0890 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.5478    1.4074   -0.7097 H   0  0  0  0  0  0  0  0  0  0  0  0
  3  2  1  0
  2  1  1  0
  3  4  2  0
  4  5  1  0
  5  6  1  0
  6  8  1  0
  6  7  2  0
  3 14  1  0
  2 12  1  0
  2 13  1  0
  1  9  1  0
  1 10  1  0
  1 11  1  0
  4 15  1  0
  5 16  1  0
  5 17  1  0
  8 18  1  0
M  END
Download

3D SDF for NP0303496 (trans-3-hexenoic acid)

  Mrv1572004251602042D          

 10  9  0  0  0  0            999 V2000
    2.0625    0.7145    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.2375    0.7145    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8250    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4125   -0.7145    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2375   -0.7145    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6500   -1.4289    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6500    0.0000    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.2375   -0.7145    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4125    0.7145    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
  2  1  1  0  0  0  0
  3  2  1  0  0  0  0
  4  3  2  0  0  0  0
  5  4  1  0  0  0  0
  6  5  1  0  0  0  0
  7  6  2  0  0  0  0
  8  6  1  0  0  0  0
  9  3  1  0  0  0  0
 10  4  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0303496

> <DATABASE_NAME>
NP-MRD

> <SMILES>
[H]\C(CC)=C(\[H])CC(O)=O

> <INCHI_IDENTIFIER>
InChI=1S/C6H10O2/c1-2-3-4-5-6(7)8/h3-4H,2,5H2,1H3,(H,7,8)/b4-3+

> <INCHI_KEY>
XXHDAWYDNSXJQM-ONEGZZNKSA-N

> <FORMULA>
C6H10O2

> <MOLECULAR_WEIGHT>
114.144

> <EXACT_MASS>
114.068079562

> <JCHEM_ACCEPTOR_COUNT>
2

> <JCHEM_ATOM_COUNT>
18

> <JCHEM_AVERAGE_POLARIZABILITY>
12.579940738550052

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(3E)-hex-3-enoic acid

> <ALOGPS_LOGP>
1.42

> <JCHEM_LOGP>
1.4489744709999999

> <ALOGPS_LOGS>
-0.68

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
0

> <JCHEM_PHYSIOLOGICAL_CHARGE>
-1

> <JCHEM_PKA_STRONGEST_ACIDIC>
4.927641530394589

> <JCHEM_POLAR_SURFACE_AREA>
37.3

> <JCHEM_REFRACTIVITY>
32.190200000000004

> <JCHEM_ROTATABLE_BOND_COUNT>
3

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
2.38e+01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
trans-3-hexenoic acid

> <JCHEM_VEBER_RULE>
1

$$$$
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3D-SDF for NP0303496 (trans-3-hexenoic acid)

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PDB for NP0303496 (trans-3-hexenoic acid)
HEADER    PROTEIN                                 25-APR-16   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   25-APR-16         0                                  
HETATM    1  C   UNK     0       3.850   1.334   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       2.310   1.334   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       1.540   0.000   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0      -0.770  -1.334   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0      -2.310  -1.334   0.000  0.00  0.00           C+0
HETATM    7  O   UNK     0      -3.080  -2.667   0.000  0.00  0.00           O+0
HETATM    8  O   UNK     0      -3.080   0.000   0.000  0.00  0.00           O+0
HETATM    9  H   UNK     0       2.310  -1.334   0.000  0.00  0.00           H+0
HETATM   10  H   UNK     0      -0.770   1.334   0.000  0.00  0.00           H+0
CONECT    1    2                                                            
CONECT    2    1    3                                                       
CONECT    3    2    4    9                                                  
CONECT    4    3    5   10                                                  
CONECT    5    4    6                                                       
CONECT    6    5    7    8                                                  
CONECT    7    6                                                            
CONECT    8    6                                                            
CONECT    9    3                                                            
CONECT   10    4                                                            
MASTER        0    0    0    0    0    0    0    0   10    0   18    0
END

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3D PDB for NP0303496 (trans-3-hexenoic acid)
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SMILES for NP0303496 (trans-3-hexenoic acid)
[H]\C(CC)=C(\[H])CC(O)=O
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INCHI for NP0303496 (trans-3-hexenoic acid)
InChI=1S/C6H10O2/c1-2-3-4-5-6(7)8/h3-4H,2,5H2,1H3,(H,7,8)/b4-3+
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View in JSmol
Synonyms
ValueSource
(3E)-3-Hexenoic acidChEBI
(e)-3-Hexenoic acidChEBI
3-trans-Hexenoic acidChEBI
6:1, N-3 transChEBI
C6:1, N-3 transChEBI
Hex-3t-enoic acidChEBI
trans-3-Hexenoic acidChEBI
trans-Hex-3-ensaeureChEBI
(3E)-3-HexenoateGenerator
(e)-3-HexenoateGenerator
3-trans-HexenoateGenerator
Hex-3t-enoateGenerator
trans-3-HexenoateGenerator
trans-Hex-3-enoateGenerator
(e)-Hex-3-enoateGenerator
HydrosorbateGenerator
Chemical FormulaC6H10O2
Average Mass114.1440 Da
Monoisotopic Mass114.06808 Da
IUPAC Name(3E)-hex-3-enoic acid
Traditional Nametrans-3-hexenoic acid
CAS Registry NumberNot Available
SMILES
[H]\C(CC)=C(\[H])CC(O)=O
InChI Identifier
InChI=1S/C6H10O2/c1-2-3-4-5-6(7)8/h3-4H,2,5H2,1H3,(H,7,8)/b4-3+
InChI KeyXXHDAWYDNSXJQM-ONEGZZNKSA-N
Experimental Spectra
Not Available
Predicted Spectra
Chemical Shift Submissions
Not Available
Species
Species of Origin
Species NameSourceReference
Vitis viniferaLOTUS Database
Chemical Taxonomy
Description Belongs to the class of organic compounds known as medium-chain fatty acids. These are fatty acids with an aliphatic tail that contains between 4 and 12 carbon atoms.
KingdomOrganic compounds  
Super ClassLipids and lipid-like molecules  
ClassFatty Acyls  
Sub ClassFatty acids and conjugates  
Direct ParentMedium-chain fatty acids  
Alternative Parents
Substituents
  • Medium-chain fatty acid
    • 

  • Unsaturated fatty acid
    • 

  • Straight chain fatty acid
    • 

  • Monocarboxylic acid or derivatives
    • 

  • Carboxylic acid
    • 

  • Carboxylic acid derivative
    • 

  • Organic oxygen compound
    • 

  • Organic oxide
    • 

  • Hydrocarbon derivative
    • 

  • Organooxygen compound
    • 

  • Carbonyl group
    • 

  • Aliphatic acyclic compound
Molecular FrameworkAliphatic acyclic compounds
External Descriptors
Physical Properties
StateNot Available
Experimental Properties
PropertyValueReference
Melting PointNot AvailableNot Available
Boiling PointNot AvailableNot Available
Water SolubilityNot AvailableNot Available
LogPNot AvailableNot Available
Predicted Properties
PropertyValueSource
logP1.42ALOGPS
logP1.45ChemAxon
logS-0.68ALOGPS
pKa (Strongest Acidic)4.93ChemAxon
Physiological Charge-1ChemAxon
Hydrogen Acceptor Count2ChemAxon
Hydrogen Donor Count1ChemAxon
Polar Surface Area37.3 ŲChemAxon
Rotatable Bond Count3ChemAxon
Refractivity32.19 m³·mol⁻¹ChemAxon
Polarizability12.58 ųChemAxon
Number of Rings0ChemAxon
BioavailabilityYesChemAxon
Rule of FiveYesChemAxon
Ghose FilterNoChemAxon
Veber's RuleYesChemAxon
MDDR-like RuleNoChemAxon
HMDB IDNot Available
DrugBank IDNot Available
Phenol Explorer Compound IDNot Available
FoodDB IDNot Available
KNApSAcK IDNot Available
Chemspider IDNot Available
KEGG Compound IDNot Available
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia LinkNot Available
METLIN IDNot Available
PubChem Compound5282708  
PDB IDNot Available
ChEBI ID49285  
Good Scents IDNot Available
References
General References
  1. LOTUS database [Link]